FTICR
2023-05-02
FTICR Van krevalin diagrams:
click to open
FTICR Common vs unique peaks by treatment:
click to open
| Class | -2 | -6 |
|---|---|---|
| aliphatic | 465 | 230 |
| aromatic | 29 | 33 |
| condensed aromatic | 16 | 12 |
| unsaturated/lignin | 103 | 166 |
| Class | Pre | 2 | 4 | 6 | 8 | 10 |
|---|---|---|---|---|---|---|
| aliphatic | 55 | 57 | 17 | 10 | 14 | 11 |
| unsaturated/lignin | 39 | 11 | 8 | 4 | 10 | 2 |
| aromatic | 14 | 2 | 3 | 1 | 2 | NA |
| condensed aromatic | 2 | 4 | NA | NA | 4 | NA |
| Class | -2_Pre | -6_Pre | -2_2 | -6_2 | -2_4 | -6_4 | -2_6 | -6_6 | -2_8 | -6_8 | -2_10 | -6_10 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| aliphatic | 38 | 10 | 54 | 3 | 17 | NA | 10 | NA | 13 | 1 | 11 | NA |
| unsaturated/lignin | 25 | 8 | 9 | 2 | 7 | 1 | 3 | 1 | 8 | 2 | NA | 2 |
| aromatic | 11 | 3 | 2 | NA | 1 | 2 | NA | 1 | 2 | NA | NA | NA |
| condensed aromatic | 2 | NA | 4 | NA | NA | NA | NA | NA | 4 | NA | NA | NA |
FTICR Permanova results and PCAs:
click to open
Permanova results:
| Df | SumOfSqs | R2 | F | Pr(>F) | |
|---|---|---|---|---|---|
| pre | 1 | 0.2906302 | 0.0458303 | 9.8161099 | 0.005 |
| inc | 5 | 0.0082554 | 0.0013018 | 0.0557657 | 0.998 |
| pre:inc | 5 | 0.0322426 | 0.0050844 | 0.2178001 | 0.956 |
| Residual | 203 | 6.0103176 | 0.9477835 | NA | NA |
| Total | 214 | 6.3414458 | 1.0000000 | NA | NA |
| Df | SumOfSqs | R2 | F | Pr(>F) | |
|---|---|---|---|---|---|
| pre | 1 | 0.0001709 | 0.0163378 | 4.023551 | 0.024 |
| inc | 5 | 0.0046123 | 0.4408260 | 21.712725 | 0.001 |
| pre:inc | 5 | 0.0016011 | 0.1530252 | 7.537202 | 0.001 |
| Residual | 96 | 0.0040785 | 0.3898110 | NA | NA |
| Total | 107 | 0.0104629 | 1.0000000 | NA | NA |
| Df | SumOfSqs | R2 | F | Pr(>F) | |
|---|---|---|---|---|---|
| pre | 1 | 0.0066753 | 0.1654780 | 24.5398933 | 0.001 |
| inc | 5 | 0.0066012 | 0.1636400 | 4.8534640 | 0.002 |
| pre:inc | 5 | 0.0012213 | 0.0302756 | 0.8979562 | 0.479 |
| Residual | 95 | 0.0258419 | 0.6406064 | NA | NA |
| Total | 106 | 0.0403397 | 1.0000000 | NA | NA |
PCA results:
Session Info
Session Info
Date run: 2023-05-03
## R version 4.2.3 (2023-03-15 ucrt)
## Platform: x86_64-w64-mingw32/x64 (64-bit)
## Running under: Windows 10 x64 (build 19045)
##
## Matrix products: default
##
## locale:
## [1] LC_COLLATE=English_United States.utf8
## [2] LC_CTYPE=English_United States.utf8
## [3] LC_MONETARY=English_United States.utf8
## [4] LC_NUMERIC=C
## [5] LC_TIME=English_United States.utf8
##
## attached base packages:
## [1] grid stats graphics grDevices utils datasets methods
## [8] base
##
## other attached packages:
## [1] pmartR_2.3.0 agricolae_1.3-5 knitr_1.42 nlme_3.1-162
## [5] cowplot_1.1.1 ggpubr_0.6.0 janitor_2.2.0 pracma_2.4.2
## [9] reshape2_1.4.4 ggbiplot_0.55 scales_1.2.1 plyr_1.8.8
## [13] vegan_2.6-4 lattice_0.20-45 permute_0.9-7 lubridate_1.9.2
## [17] forcats_1.0.0 stringr_1.5.0 dplyr_1.1.1 purrr_1.0.1
## [21] readr_2.1.4 tidyr_1.3.0 tibble_3.2.1 ggplot2_3.4.2
## [25] tidyverse_2.0.0 tarchetypes_0.7.5 targets_0.14.3
##
## loaded via a namespace (and not attached):
## [1] colorspace_2.1-0 ggsignif_0.6.4 ellipsis_0.3.2 snakecase_0.11.0
## [5] fs_1.6.1 rstudioapi_0.14 listenv_0.9.0 furrr_0.3.1
## [9] farver_2.1.1 fansi_1.0.4 codetools_0.2-19 splines_4.2.3
## [13] cachem_1.0.7 jsonlite_1.8.4 broom_1.0.4 cluster_2.1.4
## [17] shiny_1.7.4 compiler_4.2.3 backports_1.4.1 Matrix_1.5-3
## [21] fastmap_1.1.1 cli_3.6.0 later_1.3.0 htmltools_0.5.4
## [25] tools_4.2.3 igraph_1.4.1 gtable_0.3.3 glue_1.6.2
## [29] Rcpp_1.0.10 carData_3.0-5 jquerylib_0.1.4 vctrs_0.6.0
## [33] iterators_1.0.14 xfun_0.38 globals_0.16.2 ps_1.7.2
## [37] timechange_0.2.0 mime_0.12 miniUI_0.1.1.1 lifecycle_1.0.3
## [41] rstatix_0.7.2 future_1.32.0 MASS_7.3-58.2 hms_1.1.2
## [45] promises_1.2.0.1 parallel_4.2.3 yaml_2.3.7 sass_0.4.5
## [49] labelled_2.10.0 ggExtra_0.10.0 stringi_1.7.12 highr_0.10
## [53] klaR_1.7-1 AlgDesign_1.2.1 foreach_1.5.2 PNWColors_0.1.0
## [57] rlang_1.1.0 pkgconfig_2.0.3 evaluate_0.20 labeling_0.4.2
## [61] processx_3.8.0 tidyselect_1.2.0 parallelly_1.35.0 magrittr_2.0.3
## [65] R6_2.5.1 generics_0.1.3 base64url_1.4 combinat_0.0-8
## [69] pillar_1.9.0 haven_2.5.2 withr_2.5.0 mgcv_1.8-42
## [73] abind_1.4-5 car_3.1-1 questionr_0.7.8 utf8_1.2.3
## [77] tzdb_0.3.0 rmarkdown_2.21 future.callr_0.8.1 data.table_1.14.8
## [81] callr_3.7.3 digest_0.6.31 xtable_1.8-4 httpuv_1.6.9
## [85] munsell_0.5.0 bslib_0.4.2